Fixed tests requiring mocking

biosimulators · Sep 24, 2024 · beeda7c · beeda7c
1 parent 2036cd4
commit beeda7c
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Showing 4 changed files with 327 additions and 278 deletions.
diff --git a/biosimulators_utils/log/utils.py b/biosimulators_utils/log/utils.py
@@ -11,7 +11,7 @@
 from ..config import Config  # noqa: F401
 from ..sedml.data_model import SedDocument, Task, Output, Report, Plot2D, Plot3D, DataSet, Curve, Surface
 from ..sedml.io import SedmlSimulationReader
-from ..sedml.utils import get_variables_for_task
+from ..sedml.utils import is_executable_task
 from ..warnings import warn
 from .data_model import (Status, CombineArchiveLog, SedDocumentLog,  # noqa: F401
                          TaskLog, OutputLog, ReportLog, Plot2DLog, Plot3DLog,
@@ -103,7 +103,7 @@ def init_sed_document_log(doc,
 
     if Task in logged_features:
         log.tasks = {}
-        for valid_task in [task for task in doc.tasks if 0 < len(get_variables_for_task(doc, task))]:
+        for valid_task in [task for task in doc.tasks if is_executable_task(doc, task)]:
             task_log = init_task_log(valid_task, supported_features=supported_features, logged_features=logged_features)
             task_log.status = Status.QUEUED if isinstance(valid_task, supported_features) else Status.SKIPPED
             task_log.parent = log